Topic 121

genomes genome species genomic strains sequence genomics genes genus phylogenetic sequences microbiology family bacteria host comparative gene diversity isolates bacterial diverse sequenced viruses members evolutionary evolution hosts identified genera encode closely horizontal complete coding strain analyses phage encoded revealed pathogen lineages isolated encoding phages infecting elements other clusters amino related genetic clade plant transfer pathogens all similarity group conserved analysis mobile pathogenic assembled phylogeny nucleotide sequencing characterization virus number some belonging cluster families whole infect recombination dna discovered among database novel core known taxonomic content acid fungi described belong origin one previously databases were virulence have highly presence representative bacteriophages

284 items. Top items listed below.

Revisiting the Genomic Structure of the Genus Pseudomonas with Whole Genome Data: Insights into Diversity and Host-related Genetic Determinants 121 114 12 5

Lytic Bacteroides uniformis bacteriophages exhibiting host tropism congruent with diversity generating retroelement 143 121 29 12 5

Dynamics of infection in a novel group of promiscuous phages and hosts of multiple bacterial genera retrieved from river communities 143 121 29 12 5

Characterising the methylome of Legionellalongbeachae serogroup 1 clinical isolates and assessing geo-temporal genetic diversity 121 40 12 5

Genomic rearrangements generate hypervariable mini-chromosomes in host-specific lineages of the blast fungus 121 40 5

Metagenomic association analysis of gut symbiont Lactobacillus reuteri without host-specific genome isolation 121 29 12 5 4

Same, Same, but Different: Molecular Analyses of Streptococcus pneumoniae Immune Evasion Proteins Identifies new Domains and Reveals Structural Differences between PspC and Hic Variants 121 114 12 9 8

Comparative genomics reveals different population structures associated with host and geographic origin in antimicrobial-resistant Salmonella enterica 107 52 12 5

Secondary metabolism in the gill microbiota of shipworms (Teredinidae) as revealed by comparison of metagenomes and nearly complete symbiont genomes 143 121 29 12 5

Comparative genome and transcriptome analyses revealing interspecies variations in the expression of fungal biosynthetic gene clusters 121 9 5

Comparative Gene Essentiality across the Bacterial Domain 121 9 5

Plasmids encode niche-specific traits in Lactobacillaceae 121 12 5

Unveiling Crucivirus Diversity by Mining Metagenomic Data 121 40 5

POPULATION GENOMICS REVEALS MOLECULAR DETERMINANTS OF SPECIALIZATION TO TOMATO IN THE POLYPHAGOUS FUNGAL PATHOGEN BOTRYTIS CINEREA 121 21 5

Exploring the genomic and proteomic variations of SARS-CoV-2 spike glycoprotein: a computational biology approach 37 1

Population analysis of Legionella pneumophila reveals the basis of resistance to complement-mediated killing 121 114 12 5

Bacterial single-cell genomics enables phylogenetic analysis and reveals population structures from in vitro evolutionary studies 107 52 12 9 5 4

Multi-omics approach highlights differences between functional RLP classes in Arabidopsis thaliana 134 9 5

Phylogenetic analysis of the salinipostin γ-butyrolactone gene cluster uncovers new potential for bacterial signaling-molecule diversity 121 79 12 5

Comparative genomics suggests limited variability and similar evolutionary patterns between major clades of SARS-Cov-2 37 21 5 1

The complete genome sequence of the Staphylococcus bacteriophage Metroid 143 121 52 12 5

The impact of genetic diversity on gene essentiality within the E. coli species 139 121 12 5

The protector within: Comparative genomics of APSE phages across aphids reveals rampant recombination and diverse toxin arsenals 121 40 12 5

Genomic and phenotypic heterogeneity of clinical isolates of the human pathogens Aspergillus fumigatus, Aspergillus lentulus and Aspergillus fumigatiaffinis 121 114 107 12 5

Pan-genome-wide analysis of Pantoea ananatis identified genes linked to pathogenicity in onion 121 9 5

Features of Functional Human Genes. 121 40 9 5 4

Ecogenomics of groundwater viruses suggests niche differentiation linked to specific environmental tolerance 143 29 12 5

High diversity and variability of pipolins among a wide range of pathogenic Escherichia coli strains 121 40 12 5

Predicting Antimicrobial Resistance Using Conserved Genes 182 107 52 26 4

Genome evolution and pathoadaptation of Shigella 121 12 5

Panoramic Insights into the Microevolution and Macroevolution of Prevotella copri-containing Lineage in Primate Guts 143 40 29 5

Whole Genome Sequences of Aedes aegypti (Linn.) Field Isolates from Southern India 48 25 9 5 4

Evolutionary dynamics of bipartite begomoviruses revealed by complete genome analysis 121 40 21 5

What can we learn from over 100,000 Escherichia coli genomes? 121 40 12 5 4

Integrative and Conjugative Elements (ICE) and Associated Cargo Genes within and across Hundreds of Bacterial Genera 107 52 12 5

Phylogenetic background and habitat drive the genetic diversification of Escherichia coli 121 40 5

Thousands of previously unknown phages discovered in whole-community human gut metagenomes 121 29 12 5

Genome diversification via genetic exchanges between temperate and virulent bacteriophages 143 121 21 5

Genomic characterisation and context of the blaNDM-1 carbapenemase in Escherichia coli ST101. 107 52 25 12 5

Global population genomic analysis of Mycoplasma bovis isolates reveals transcontinental variations and potential virulence genes 121 107 40 12 5

The defining genomic and predicted metabolic features of the Acetobacterium genus 121 67 12 5

Gene loss and acquisition in lineages of bacteria evolving in a human host environment 121 21 5

A comprehensive and high-quality collection of E. coli genomes and their genes 121 13 4

Infection with novel Bacteroides phage BV01 alters host transcriptome and bile acid metabolism in a common human gut microbe 143 29 12 9 5

Population genomics of louping ill virus provide new insights into the evolution of tick-borne flaviviruses 40 5

The glycan alphabet is not universal: a hypothesis 121 12 5

The Thermosynechococcus genus: wide environmental distribution, but a highly conserved genomic core 121 40 5

A Genome-based Model to Predict the Virulence of Pseudomonas aeruginosa Isolates 26 4

Pathway-based and phylogenetically adjusted quantification of metabolic interaction between microbial species 143 29 4

Long-read shotgun metagenome sequencing using PromethION uncovers novel bacteriophages, their abundance, and interaction with host bacterial immunity in the oral microbiota 25 12 5 4

Unique genomic features of crAss-like phages, the dominant component of the human gut virome 121 40 12 5

Phage recombination drives evolution of spore-forming Bacilli 143 121 40 12 5

Absent from DNA and protein: genomic characterization of nullomers and nullpeptides across functional categories and evolution 121 97 40 21 5

Genomic insights into the host specific adaptation of the Pneumocystis genus and emergence of the human pathogen Pneumocystis jirovecii 121 40 21 12 5

Strain-specific genome evolution in Trypanosoma cruzi, the agent of Chagas disease 121 40 12 5

Sequence of a Coxiella endosymbiont of the tick Amblyomma nuttalli suggests a pattern of convergent genome reduction in the Coxiella genus 40 5

Ever-increasing viral diversity associated with the red imported fire ant Solenopsis invicta (Formicidae: Hymenoptera) 121 25 5

Protein covariance networks reveal interactions important to the emergence of SARS coronaviruses as human pathogens 37 1

Metagenomic identification of diverse animal hepaciviruses and pegiviruses 121 40 5

A partial pathogenicity chromosome in Fusarium oxysporum is sufficient to cause disease and can be horizontally transferred 114 12 5

Comprehensive Comparative Genomics Reveals Over 50 Phyla of Free-living and Pathogenic Bacteria are Associated with Diverse Members of the Amoebozoa 143 121 12 5

sPepFinder expedites genome-wide identification of small proteins in bacteria 105 26 4

Comprehensive genome analyses of Sellimonas intestinalis, a potential biomarker of homeostasis gut recovery 121 12 5

Biosynthetic gene clusters, secondary metabolite profiles, and cards of virulence in the closest nonpathogenic relatives of Aspergillus fumigatus 114 12 5

Comparative genomics analyses of lifestyle transitions at the origin of an invasive fungal pathogen in the genus Cryphonectria 121 40 5

In-silico analysis of SARS-CoV-2 genomes: Insights from SARS encoded non-coding RNAs 37 1

Genomic features underlying the evolutionary transitions of Apibacter to honey bee gut symbionts 143 121 12 5

A phylogenetic analysis of MCTP proteins: from amino acid sequence to function 121 40 8

Genome reduction is associated with bacterial pathogenicity across different scales of temporal and ecological divergence 143 121 40 5

An enhanced characterization of the human skin microbiome: a new biodiversity of microbial interactions 29 12 5

Widespread conservation and lineage-specific diversification of genome-wide DNA methylation patterns across arthropods 81 40 31 21 9 5

The phylogenetic range of bacterial and viral pathogens of vertebrates 143 121 5

Are Antisense Proteins in Prokaryotes Functional? 121 49 40 9 4

Genomic insights into adaptations of TMA-utilizing methanogens to diverse habitats including the human gut 29 5

The strength of a NES motif in the nucleocapsid protein of human coronaviruses is related to genus, but not to pathogenic capacity 121 1

Toxin-antitoxin gene pairs found in Tn3family transposons appear to be an integral part of the transposition module 81 79 12 5

Codon-usage optimization in the prokaryotic tree of life: How synonymous codons are differentially selected in sequence domains with different expression levels and degrees of conservation. 121 40 5

Exhaustive identification of conserved upstream open reading frames with potential translational regulatory functions from animal genomes 121 49 40 9 5

RNA polymerases in strict endosymbiont bacteria with extreme genome reduction show distinct erosions that could result in limited and differential promoters recognition. 121 40 5

Chasing the origin of SARS-CoV-2 in Canada's COVID-19 cases: A genomics study 37 1

An introgressed gene causes meiotic drive in Neurospora sitophila 40 21 5

Cryptic prophages within a Streptococcus pyogenes genotype emm4 lineage 121 107 40 12 5

Evolutionarily Conserved Transcription Factors Drive the Oxidative Stress Response in Drosophila 134 31 9 3

Abundantly expressed class of non-coding RNAs conserved through the multicellular evolution of dictyostelid social amoebae 40 9 5

De novo virus inference and host prediction from metagenome using CRISPR spacers 121 25 5 4

Evolution of conserved noncoding sequences in Arabidopsis thaliana 134 40 9 5

PHERI - Phage Host Exploration tool. 140 121 4

A 19-isolate reference-quality global pangenome for the fungal wheat pathogen Zymoseptoria tritici 81 40 12 5

Genomic rearrangements uncovered by genome-wide co-evolution analysis of a major nosocomial pathogen Enterococcus faecium 121 107 40 12 5

Bats are key hosts in the radiation of mammal-associated Bartonella bacteria 40 5

Meta-transcriptomic detection of diverse and divergent RNA viruses in green and chlorarachniophyte algae 40 5

A large accessory genome, high recombination rates, and selection of secondary metabolite genes help maintain global distribution and broad host range of the fungal plant pathogen Claviceps purpurea 21 5

Diversification of the restriction modification system of Streptococcus pyogenes through its acquisition of mobile elements 121 12 9

Population genomics and pathotypic evaluation of the bacterial leaf blight pathogen of rice reveals rapid evolutionary dynamics of a plant pathogen 121 40 5

Large scale metagenome assembly reveals novel animal-associated microbial genomes, biosynthetic gene clusters, and other genetic diversity 29 25 12 5 4

The fully resolved genome of Bacillus thuringiensis HER1410 reveals a cry-containing chromosome, two megaplasmids & an integrative plasmidial prophage 121 25 12 5

Genes influencing phage host range in Staphylococcus aureus on a species-wide scale 52 12 5

Discovery of divided RdRp sequences and a hitherto unknown genomic complexity in fungal viruses 121 41 12 4

Expanding magnetic organelle biogenesis in the domain Bacteria 40 5

An investigation of Burkholderia cepacia complex methylomes via SMRT sequencing and mutant analysis 79 12 9 5